Table 1.
Gene ontology (GO) terms enriched by cold induced genes at 24 h/0 h.
| GO.ID | Term | Level | Annotated | Significant | Expected | Classic | Probe ID |
|---|---|---|---|---|---|---|---|
| GO:0051552 | Flavone metabolic process | 5 | 2 | 2 | 0.04 | 0.00042 | cn2956, cn2958 |
| GO:0051553 | Flavone biosynthetic process | 6 | 2 | 2 | 0.04 | 0.00042 | cn2956, cn2958 |
| GO:0051554 | Flavonol metabolic process | 6 | 2 | 2 | 0.04 | 0.00042 | cn2956, cn2958 |
| GO:0051555 | Flavonol biosynthetic process | 7 | 2 | 2 | 0.04 | 0.00042 | cn2956, cn2958 |
| GO:0046148 | Pigment biosynthetic process | 5 | 10 | 3 | 0.21 | 0.00085 | cn173, cn2956, cn2958 |
| GO:0042440 | Pigment metabolic process | 4 | 11 | 3 | 0.23 | 0.00116 | cn173, cn2956, cn2958 |
| GO:0009813 | Flavonoid biosynthetic process | 5 | 13 | 3 | 0.27 | 0.00195 | cn2956, cn2958, cn3395 |
| GO:0009812 | Flavonoid metabolic process | 4 | 14 | 3 | 0.29 | 0.00245 | cn2956, cn2958, cn3395 |
| GO:0048518 | Positive regulation of biological process | 4 | 14 | 3 | 0.29 | 0.00245 | cn173, cn4309, cn8214 |
| GO:0010628 | Positive regulation of gene expression | 7 | 5 | 2 | 0.1 | 0.004 | cn4309, cn8214 |
| GO:0045893 | Positive regulation of transcription, DNA-templated | 11 | 5 | 2 | 0.1 | 0.004 | cn4309, cn8214 |
| GO:0045935 | Positive regulation of nucleobase-containing compound metabolic process | 7 | 5 | 2 | 0.1 | 0.004 | cn4309, cn8214 |
| GO:0051173 | Positive regulation of nitrogen compound metabolic process | 6 | 5 | 2 | 0.1 | 0.004 | cn4309, cn8214 |
| GO:0051254 | Positive regulation of RNA metabolic process | 9 | 5 | 2 | 0.1 | 0.004 | cn4309, cn8214 |
| GO:1902680 | Positive regulation of RNA biosynthetic process | 10 | 5 | 2 | 0.1 | 0.004 | cn4309, cn8214 |
| GO:0009891 | Positive regulation of biosynthetic process | 6 | 6 | 2 | 0.13 | 0.00592 | cn4309, cn8214 |
| GO:0010557 | Positive regulation of macromolecule biosynthetic process | 7 | 6 | 2 | 0.13 | 0.00592 | cn4309, cn8214 |
| GO:0010604 | Positive regulation of macromolecule metabolic process | 6 | 6 | 2 | 0.13 | 0.00592 | cn4309, cn8214 |
| GO:0031328 | Positive regulation of cellular biosynthetic process | 7 | 6 | 2 | 0.13 | 0.00592 | cn4309, cn8214 |
| GO:0009893 | Positive regulation of metabolic process | 5 | 7 | 2 | 0.15 | 0.00819 | cn4309, cn8214 |
| GO:0031325 | Positive regulation of cellular metabolic process | 6 | 7 | 2 | 0.15 | 0.00819 | cn4309, cn8214 |
| GO:0071478 | Cellular response to radiation | 5 | 8 | 2 | 0.17 | 0.01078 | cn172, cn173 |
| GO:0071482 | Cellular response to light stimulus | 6 | 8 | 2 | 0.17 | 0.01078 | cn172, cn173 |
| GO:0048522 | Positive regulation of cellular process | 5 | 10 | 2 | 0.21 | 0.0169 | cn4309, cn8214 |
| GO:0071214 | Cellular response to abiotic stimulus | 4 | 10 | 2 | 0.21 | 0.0169 | cn172, cn173 |
| GO:0009737 | Response to abscisic acid | 6 | 11 | 2 | 0.23 | 0.0204 | cn4309, cn8214 |
| GO:0009960 | Endosperm development | 10 | 1 | 1 | 0.02 | 0.02093 | cn6513 |
| GO:0010029 | Regulation of seed germination | 8 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0010030 | Positive regulation of seed germination | 9 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0010114 | Response to red light | 7 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0010117 | Photoprotection | 6 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0010380 | Regulation of chlorophyll biosynthetic process | 9 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0034605 | Cellular response to heat | 6 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0043248 | Proteasome assembly | 8 | 1 | 1 | 0.02 | 0.02093 | cn6513 |
| GO:0051193 | Regulation of cofactor metabolic process | 6 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0051788 | Response to misfolded protein | 6 | 1 | 1 | 0.02 | 0.02093 | cn6513 |
| GO:0070141 | Response to UV-A | 7 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0071486 | Cellular response to high light intensity | 8 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0071490 | Cellular response to far red light | 8 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0071491 | Cellular response to red light | 8 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0071492 | Cellular response to UV-A | 8 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:0090056 | Regulation of chlorophyll metabolic process | 8 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:1900140 | Regulation of seedling development | 7 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:1901401 | Regulation of tetrapyrrole metabolic process | 6 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:1901463 | Regulation of tetrapyrrole biosynthetic process | 7 | 1 | 1 | 0.02 | 0.02093 | cn173 |
| GO:1901617 | Organic hydroxy compound biosynthetic process | 5 | 13 | 2 | 0.27 | 0.02822 | cn2956, cn2958 |
| GO:0009639 | Response to red or far red light | 6 | 14 | 2 | 0.29 | 0.03251 | cn172, cn173 |
| GO:0006511 | Ubiquitin-dependent protein catabolic process | 11 | 15 | 2 | 0.31 | 0.03705 | cn2609, cn6513 |
| GO:0019941 | Modification-dependent protein catabolic process | 10 | 15 | 2 | 0.31 | 0.03705 | cn2609, cn6513 |
| GO:0043632 | Modification-dependent macromolecule catabolic process | 7 | 15 | 2 | 0.31 | 0.03705 | cn2609, cn6513 |
| GO:0006508 | Proteolysis | 8 | 37 | 3 | 0.77 | 0.03848 | cn2609, cn6513, GO_drpoolB-CL4454Contig1 |
| GO:0016485 | Protein processing | 7 | 37 | 3 | 0.77 | 0.03848 | cn2609, cn6513, GO_drpoolB-CL4454Contig1 |
| GO:0051604 | Protein maturation | 6 | 37 | 3 | 0.77 | 0.03848 | cn2609, cn6513, GO_drpoolB-CL4454Contig1 |
| GO:0001558 | Regulation of cell growth | 5 | 2 | 1 | 0.04 | 0.04143 | cn2956 |
| GO:0022604 | Regulation of cell morphogenesis | 7 | 2 | 1 | 0.04 | 0.04143 | cn173 |
| GO:0034644 | Cellular response to UV | 7 | 2 | 1 | 0.04 | 0.04143 | cn173 |
| GO:0035966 | Response to topologically incorrect protein | 5 | 2 | 1 | 0.04 | 0.04143 | cn2956 |
| GO:0040008 | Regulation of growth | 4 | 2 | 1 | 0.04 | 0.04143 | cn2956 |
| GO:0042023 | DNA endoreduplication | 7 | 2 | 1 | 0.04 | 0.04143 | cn173 |
| GO:0044786 | Cell cycle DNA replication | 6 | 2 | 1 | 0.04 | 0.04143 | cn4309 |
| GO:0048638 | Regulation of developmental growth | 5 | 2 | 1 | 0.04 | 0.04143 | cn4309 |
| GO:0051510 | Regulation of unidimensional cell growth | 8 | 2 | 1 | 0.04 | 0.04143 | cn4309 |
| GO:0071484 | Cellular response to light intensity | 7 | 2 | 1 | 0.04 | 0.04143 | cn4309 |
| GO:0097305 | Response to alcohol | 5 | 16 | 2 | 0.33 | 0.04182 | cn4309, cn8214 |
| GO:0018130 | Heterocycle biosynthetic process | 5 | 130 | 6 | 2.72 | 0.04235 | cn10124, cn173, cn2463, cn4309, cn559, cn8214 |
| GO:0044271 | Cellular nitrogen compound biosynthetic process | 5 | 130 | 6 | 2.72 | 0.04235 | cn10124, cn173, cn2463, cn4309, cn559, cn8214 |
| GO:0051171 | Regulation of nitrogen compound metabolic process | 5 | 67 | 4 | 1.4 | 0.04514 | cn10124, cn173, cn4309, cn8214 |